GgaINT0142781 @ galGal4
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
potassium channel, voltage gated eag related subfamily H, member 4 [Source:HGNC Symbol;Acc:HGNC:6253]
Coordinates
chr27:4852555-4853608:-
Coord C1 exon
chr27:4853481-4853608
Coord A exon
chr27:4852799-4853480
Coord C2 exon
chr27:4852555-4852798
Length
682 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
GCTGCCCTCTGCTCCTTCAGAAT
3' ss Score
9.1
Exon sequences
Seq C1 exon
AGAAGCAGAGGAGCAAGAAACCCGGCAGCTCACACCTGCGGGCGGCACGGCGGCAGGGCCGGACGGTGCTGCACCGGCTCAGCAGCCAGTTTGCACGGCAGGACCGCGGTGAGATGAAAATCAATCGG
Seq A exon
GTAAGGAGCCGGGTGCACACAGAGCCTGGCATTGCCAGGGCGCTCTCCCCATGCCGTGCTCCTCGCTGTCCCCCAAGGCACAGAAATGCCCTCGATCCCAGGCATCTGCACCATGGTCTGGTGCAAATGTTGCTGGTAGGCAGCAGAGCAGAGGATGCTGTGGGGAAAGGAGAGCTTTTGGCAGCTCTTGCATGTTGACTCTTTTCTGTGTGAGCTGTGGGGAAGCCCAGGTGCCCCAGGGAGTGCCGTTACCAGGCACTGGGTGCGTGAGCAGTCGTTTGCAGCAGCAGCACGCTGTGCCAGCCTGCTGCAGGGATGTGGGTGCAGCCAGCAGTGCTGAGTCTGGGAGGAAAGGGGCAGAGAGGCAGCAATGCCAGCAATGCCACTGCAGAGGGTGGTGGTGGGCTCTGCCCACTGCATGTGAATTTGCATGTGGGGCTGTTGAAGGCAGCAGCTGGCACTGACAATGGATTGCTGTTAATAGCATTAGTGCAACATCAATTTATGGCAGTAATCGGTTACTCTGTGTCCAGCTTTGGGTGATCTCAGTGCAGTCTGTGCGCTACGTGCCACACCAGACAGCTGTGTCCATCACCATGTCATTGGGTCCAGGGGCATCCTAGGAAAGGGGGCCTGCAGAGTAGGACCATTCCTGTGCCACCGCTGCCCTCTGCTCCTTCAG
Seq C2 exon
AATGTGTTTGAGAACAAGCCCTCCATCCCCGAGTACAAGGTGGCCTCGGTGCAGAAAGCCCACTTCATCCTGCTGCACTACAGCATCTTCAAGGCCCTCTGGGACTGGCTGATCCTGGTGGCCACTTTTTATGTGGCTGTCACTGTCCCCTACAACGTCTGCTTCACCAGCACGGAGGACAGCCTCTCGGCCGCACGCAGCACCATCGTCAGTGACATCGCGGTGGAGATGCTCTTCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.302 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084125=Ion_trans_N=PU(10.0=16.3)
A:
NA
C2:
PF084125=Ion_trans_N=PD(87.1=74.4),PF0052026=Ion_trans=PU(5.7=14.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAGAGGAGCAAGAAACCC
R:
ATGTCACTGACGATGGTGCTG
Band lengths:
344-1026
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]